AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97713

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97713.t1 MTR_5g029670 72.642 106 10 2 1 106 35 121 5.15e-45 145
MS.gene97713.t1 MTR_6g071280 42.500 80 41 2 15 94 52 126 5.53e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97713.t1 AT1G73500 49.367 79 34 3 15 93 43 115 1.64e-15 70.9
MS.gene97713.t1 AT1G32320 42.169 83 38 3 8 90 37 109 9.54e-15 68.9
MS.gene97713.t1 AT1G18350 39.423 104 56 4 10 113 37 133 3.09e-13 64.7

Find 22 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGAGATGTTTGGTCATTA+TGG 0.225008 5.1:-20280819 MS.gene97713:CDS
TGGAGATGTTTGGTCATTAT+GGG 0.304522 5.1:-20280818 MS.gene97713:CDS
TAAAACTTTCAATGCATAAA+AGG 0.328297 5.1:+20281019 None:intergenic
GCATGACACCTTACAATATA+AGG 0.339371 5.1:+20280918 None:intergenic
TCGATTCTCCTTATATTGTA+AGG 0.421851 5.1:-20280926 MS.gene97713:CDS
CTTGAGACTAAAGGCATGTC+TGG 0.432819 5.1:-20280861 MS.gene97713:CDS
ACTGTACTTGGCCATGGAAA+TGG 0.485564 5.1:-20281080 MS.gene97713:CDS
TTGAAGCTGAGATTATCAAA+AGG 0.486229 5.1:-20280953 MS.gene97713:CDS
ATAATCTCAGCTTCAAGTGT+TGG 0.489011 5.1:+20280960 None:intergenic
ATCTCAGCTTCAAGTGTTGG+TGG 0.495588 5.1:+20280963 None:intergenic
AGTGTCGGTGCTACATATGT+TGG 0.511288 5.1:+20280882 None:intergenic
TGAAGCTGAGATTATCAAAA+GGG 0.525746 5.1:-20280952 MS.gene97713:CDS
ACACTATTCCACCATTTCCA+TGG 0.528042 5.1:+20281069 None:intergenic
TCATGGCATCAAAAGTCTCT+CGG 0.541890 5.1:-20281129 MS.gene97713:CDS
CAGCTTCAAGTGTTGGTGGT+TGG 0.543087 5.1:+20280967 None:intergenic
GCAGTACACAGTACTGTACT+TGG 0.552782 5.1:-20281092 MS.gene97713:CDS
CACAGTACTGTACTTGGCCA+TGG 0.552822 5.1:-20281086 MS.gene97713:CDS
ATTTCATCACCATCCTCTCA+TGG 0.577256 5.1:-20281146 MS.gene97713:CDS
GCACCGACACTTGAGACTAA+AGG 0.578962 5.1:-20280870 MS.gene97713:CDS
GATGGTGATGAAATCAATGA+TGG 0.618303 5.1:+20281155 None:intergenic
GTACTTGGCCATGGAAATGG+TGG 0.650061 5.1:-20281077 MS.gene97713:CDS
ATGCCTTTAGTCTCAAGTGT+CGG 0.657374 5.1:+20280867 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAACTTTCAATGCATAAA+AGG + chr5.1:20280954-20280973 None:intergenic 20.0%
!!! TGAGAATGTTGATGAATTTT+TGG - chr5.1:20281132-20281151 MS.gene97713:CDS 25.0%
TCGATTCTCCTTATATTGTA+AGG - chr5.1:20281044-20281063 MS.gene97713:CDS 30.0%
TGAAGCTGAGATTATCAAAA+GGG - chr5.1:20281018-20281037 MS.gene97713:CDS 30.0%
TTGAAGCTGAGATTATCAAA+AGG - chr5.1:20281017-20281036 MS.gene97713:CDS 30.0%
! GTTTTACACTTTTCTCAAGA+TGG - chr5.1:20280968-20280987 MS.gene97713:CDS 30.0%
!! GATGAATTTTTGGAGATGTT+TGG - chr5.1:20281142-20281161 MS.gene97713:CDS 30.0%
ATAATCTCAGCTTCAAGTGT+TGG + chr5.1:20281013-20281032 None:intergenic 35.0%
GCATGACACCTTACAATATA+AGG + chr5.1:20281055-20281074 None:intergenic 35.0%
TGGAGATGTTTGGTCATTAT+GGG - chr5.1:20281152-20281171 MS.gene97713:CDS 35.0%
TTGGAGATGTTTGGTCATTA+TGG - chr5.1:20281151-20281170 MS.gene97713:CDS 35.0%
! CACTTTTCTCAAGATGGTAT+TGG - chr5.1:20280974-20280993 MS.gene97713:CDS 35.0%
! GATGGTGATGAAATCAATGA+TGG + chr5.1:20280818-20280837 None:intergenic 35.0%
!!! TGTGTACTGCTACTTTTTCA+AGG + chr5.1:20280868-20280887 None:intergenic 35.0%
ACACTATTCCACCATTTCCA+TGG + chr5.1:20280904-20280923 None:intergenic 40.0%
ATGCCTTTAGTCTCAAGTGT+CGG + chr5.1:20281106-20281125 None:intergenic 40.0%
ATTTCATCACCATCCTCTCA+TGG - chr5.1:20280824-20280843 MS.gene97713:CDS 40.0%
TCATGGCATCAAAAGTCTCT+CGG - chr5.1:20280841-20280860 MS.gene97713:CDS 40.0%
ACTGTACTTGGCCATGGAAA+TGG - chr5.1:20280890-20280909 MS.gene97713:CDS 45.0%
GCAGTACACAGTACTGTACT+TGG - chr5.1:20280878-20280897 MS.gene97713:CDS 45.0%
! CTTGAGACTAAAGGCATGTC+TGG - chr5.1:20281109-20281128 MS.gene97713:CDS 45.0%
! CTTTTGATGCCATGAGAGGA+TGG + chr5.1:20280836-20280855 None:intergenic 45.0%
! GAGACTTTTGATGCCATGAG+AGG + chr5.1:20280840-20280859 None:intergenic 45.0%
!! AGTGTCGGTGCTACATATGT+TGG + chr5.1:20281091-20281110 None:intergenic 45.0%
!! ATCTCAGCTTCAAGTGTTGG+TGG + chr5.1:20281010-20281029 None:intergenic 45.0%
CACAGTACTGTACTTGGCCA+TGG - chr5.1:20280884-20280903 MS.gene97713:CDS 50.0%
GTACTTGGCCATGGAAATGG+TGG - chr5.1:20280893-20280912 MS.gene97713:CDS 50.0%
! GCACCGACACTTGAGACTAA+AGG - chr5.1:20281100-20281119 MS.gene97713:CDS 50.0%
!! CAGCTTCAAGTGTTGGTGGT+TGG + chr5.1:20281006-20281025 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 20280812 20281180 20280812 ID=MS.gene97713
chr5.1 mRNA 20280812 20281180 20280812 ID=MS.gene97713.t1;Parent=MS.gene97713
chr5.1 exon 20280812 20281180 20280812 ID=MS.gene97713.t1.exon1;Parent=MS.gene97713.t1
chr5.1 CDS 20280812 20281180 20280812 ID=cds.MS.gene97713.t1;Parent=MS.gene97713.t1
Gene Sequence

>MS.gene97713

ATGCCATCATTGATTTCATCACCATCCTCTCATGGCATCAAAAGTCTCTCGGACCTTGAAAAAGTAGCAGTACACAGTACTGTACTTGGCCATGGAAATGGTGGAATAGTGTACAAAGTTCATCACAAGAAGAGTAATTCCTTTTATGCATTGAAAGTTTTACACTTTTCTCAAGATGGTATTGGATTTCACCAACCACCAACACTTGAAGCTGAGATTATCAAAAGGGTCGTCGATTCTCCTTATATTGTAAGGTGTCATGCAGTTTTTTACATTCCAACATATGTAGCACCGACACTTGAGACTAAAGGCATGTCTGGTGAGAATGTTGATGAATTTTTGGAGATGTTTGGTCATTATGGGTTGTGA
Protein sequence

>MS.gene97713.t1

MPSLISSPSSHGIKSLSDLEKVAVHSTVLGHGNGGIVYKVHHKKSNSFYALKVLHFSQDGIGFHQPPTLEAEIIKRVVDSPYIVRCHAVFYIPTYVAPTLETKGMSGENVDEFLEMFGHYGL